Plant Circular RNA Database

Detail information of AT1G05830_circ_g.12

			
						 General Information
					
						CircRNA Name
						AT1G05830_circ_g.12
					
						ID in PlantcircBase
						ath_circ_000864
					
						Alias
						Ath_circ_FC0196
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 1759618-1761228  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder
					
						Parent gene
						
							AT1G05830						
					
						Parent gene annotation
						
							Histone-lysine N-methyltransferase ATX2
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT1G05830_circ_g.1 AT1G05830_circ_g.2 AT1G05830_circ_g.3 AT1G05830_circ_g.4 AT1G05830_circ_g.5 AT1G05830_circ_g.6 AT1G05830_circ_g.7 AT1G05830_circ_g.8 AT1G05830_circ_g.9 AT1G05830_circ_g.10 AT1G05830_circ_g.11 AT1G05830_circ_g.13 AT1G05830_circ_g.14 AT1G05830_circ_g.15 AT1G05830_circ_g.16 AT1G05830_circ_g.17 AT1G05830_circ_g.18 						
					
						Support reads
						7
					
						Tissues
						root, whole_plant
					
						Exon boundary  
						
							Yes-Yes							"Exon boundary" shows whether the splicing sites are on the boundary of exons or not. For example, "Yes-No" represents the donor splicing site is on the exon boundary and the accepter is not on the exon boundary.

						Splicing signals  
						
							GT-AG							The splicing signals of the circRNA. For example, "AG-GT" represents that the donor and the accepter splicing signal is "AG" and "GT", respectively.

						Number of exons covered
						AT1G05830.3:6
AT1G05830.1:6
AT1G05830.4:6
AT1G05830.2:6

General Information
CircRNA Name	AT1G05830_circ_g.12
ID in PlantcircBase	ath_circ_000864
Alias	Ath_circ_FC0196
Organism	Arabidpsis thaliana
Position	chr1: 1759618-1761228 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	CIRCexplorer, PcircRNA_finder
Parent gene	AT1G05830
Parent gene annotation	Histone-lysine N-methyltransferase ATX2
Parent gene strand	+
Alternative splicing	AT1G05830_circ_g.1 AT1G05830_circ_g.2 AT1G05830_circ_g.3 AT1G05830_circ_g.4 AT1G05830_circ_g.5 AT1G05830_circ_g.6 AT1G05830_circ_g.7 AT1G05830_circ_g.8 AT1G05830_circ_g.9 AT1G05830_circ_g.10 AT1G05830_circ_g.11 AT1G05830_circ_g.13 AT1G05830_circ_g.14 AT1G05830_circ_g.15 AT1G05830_circ_g.16 AT1G05830_circ_g.17 AT1G05830_circ_g.18
Support reads	7
Tissues	root, whole_plant
Exon boundary	Yes-Yes "Exon boundary" shows whether the splicing sites are on the boundary of exons or not. For example, "Yes-No" represents the donor splicing site is on the exon boundary and the accepter is not on the exon boundary.
Splicing signals	GT-AG The splicing signals of the circRNA. For example, "AG-GT" represents that the donor and the accepter splicing signal is "AG" and "GT", respectively.
Number of exons covered	AT1G05830.3:6 AT1G05830.1:6 AT1G05830.4:6 AT1G05830.2:6

			
						 Experimental Information
					
						Sanger sequencing for BSS  
						
							NA							Sanger sequencing for back-splicing site (BSS) validation. "Yes" represents Sanger sequencing has been performed to valid the back-splicing site, "No" represents the opposite, "NA" represents "not available".

						PCR primers for BSS   
						
							NA							PCR primers used in back-splicing site (BSS) validation.

						Sanger sequencing for FL   
						
							NA							Sanger sequencing for full-length (FL) sequence validation of circRNAs. "Yes" represents Sanger sequencing has been performed to valid the full-length of circRNA, "No" represents the opposite.

						PCR primers for FL   
						
							NA							 PCR primers used in full-length (FL) sequence validation.

Experimental Information
Sanger sequencing for BSS	NA Sanger sequencing for back-splicing site (BSS) validation. "Yes" represents Sanger sequencing has been performed to valid the back-splicing site, "No" represents the opposite, "NA" represents "not available".
PCR primers for BSS	NA PCR primers used in back-splicing site (BSS) validation.
Sanger sequencing for FL	NA Sanger sequencing for full-length (FL) sequence validation of circRNAs. "Yes" represents Sanger sequencing has been performed to valid the full-length of circRNA, "No" represents the opposite.
PCR primers for FL	NA PCR primers used in full-length (FL) sequence validation.

			
				
						 Sequences
					

				
						Splice junction sequence  
						
							AAGATGCCGGGGTGTTGTTAATGACACAGAAGCCGAAGAACGACAGGCAAATATTCATGCTTCT
CGCTGTGAGTTAAAAGAGTGGACAGAGTCCTGAGAGagccatataattatcttggaagaagagg
acgaaaggaacctgaagctcttgctggtgcttcttcaaagcgattatttgttgagaatcaaccg
tatattgt

									
								

					

						Assembled circRNA sequence  
						
							Yes
The sequence of a circRNA based on assembly using circseq-cup (Ye et al., 2016) or CIRI-full (Zheng and Zhao, 2018) or CIRCexplorer2 (Zhang et al., 2016).

					

						Full-length trsnacripts
						
							Transcript length: 731
Transcript exons: 1759618-1759863,1760191-1760252,1760335-1760412,1760717-
1760812,1760902-1761005,1761084-1761228
AGCCATATAATTATCTTGGAAGAAGAGGACGAAAGGAACCTGAAGCTCTTGCTGGTGCTTCTTC
AAAGCGATTATTTGTTGAGAATCAACCGTATATTGTTGGCGGATACTCTCGACATGAATTTTCA
ACCTACGAACGCATTTATGGATCAAAGATGTCCCAAATAACTACTCCGAGCAATATTCTATCTA
TGGCCGAGAAATATACATTCATGAAGGAAACCTACAGGAAGAGATTAGCATTCGGGAAATCGGG
AATTCATGGTTTTGGGATCTTTGCAAAGCTTCCGCACAGAGCCGGAGATATGGTGATTGAGTAC
ACTGGTGAACTTGTTAGGCCACCAATAGCTGACAAGAGAGAGCATCTTATATACAACTCAATGG
TGGGTGCCGGGACCTATATGTTTAGAATTGATAATGAGCGGGTCATAGACGCAACAAGGACAGG
AAGCATTGCTCACCTTATCAATCATTCATGTGAGCCAAATTGCTATTCAAGAGTCATCAGTGTT
AATGGTGATGAGCATATTATCATATTTGCAAAGAGAGATGTCGCAAAATGGGAGGAGCTGACCT
ATGATTATAGGTTCTTTTCAATTGATGAGCGCCTTGCATGTTACTGTGGTTTCCCAAGATGCCG
GGGTGTTGTTAATGACACAGAAGCCGAAGAACGACAGGCAAATATTCATGCTTCTCGCTGTGAG
TTAAAAGAGTGGACAGAGTCCTGAGAG
						
					

						Genomic sequence
						
							AGCCATATAATTATCTTGGAAGAAGAGGACGAAAGGAACCTGAAGCTCTTGCTGGTGCTTCTTC
AAAGCGATTATTTGTTGAGAATCAACCGTATATTGTTGGCGGATACTCTCGACATGAATTTTCA
ACCTACGAACGCATTTATGGATCAAAGATGTCCCAAATAACTACTCCGAGCAATATTCTATCTA
TGGCCGAGAAATATACATTCATGAAGGAAACCTACAGGAAGAGATTAGCATTCGGTAAGCGTTT
ATTCAGAAATCGTAAAATATGCTACAACTTGTCAAAGTTGCTGCTATGATGCCTCGGTTTTTCA
TGCCTTTGGGGGGTTTTTGAGGATCAAAAATTTCTGTAAGAAGATAAAATTGGTGGGACTTTTT
TTTCTACTTGAATTCTTGGGATGTATGGTGCATTACTGTGATGGGTCTCTGGATATAGTGATCA
TTTTTACTTATTTAGGATTAGACGGGAAACGTTTCCCATAAAACCTAACATCTCTATCATAACT
AATAACTAATTTTATCTGAACCTTTTTTGTTTTCCTTTAAATGATTTACTTTCTTCTACAGGGA
AATCGGGAATTCATGGTTTTGGGATCTTTGCAAAGCTTCCGCACAGAGCCGGAGATATGGTAAG
GCATTCTTATATTTTACTGTCCATTCTTGCTTAGTATAACGTCATGACTGACAATGTTGTGAAT
TGGGTGGGTGCAGGTGATTGAGTACACTGGTGAACTTGTTAGGCCACCAATAGCTGACAAGAGA
GAGCATCTTATATACAACTCAATGGTGGTACGTATCTGACTTTGTACATTTTATACTTCTTAGA
AAATTCTGAACAATATTGGACCTAATTATCAGCACATTGATCTGTGGCTTTTCTCATCTAGACC
GATATATCACTTTACTTTGATGTATTTTATTGAATGATTTCTCTGGCTCGAGCCCTGAACATTC
TCTTAGCATTCCCTTTACCACTCTGTGTTGTTAGTATACACATCTTCCTAACTTTCACTCTCTT
ATTTTTAGAATCTGATATTTTTGGTTATGAGTACTGAGTAGTTAGTTATCAATTTACCACTCCT
TTATGATATAGGGTGCCGGGACCTATATGTTTAGAATTGATAATGAGCGGGTCATAGACGCAAC
AAGGACAGGAAGCATTGCTCACCTTATCAATCATTCATGTGAGGTATGGTCAAGCAGTTTTGAC
GATTTGTTATTTAATTTACTTAGTATCTGCAATATCATCACATTACTTATGGATATGCTTCTGT
ACAGCCAAATTGCTATTCAAGAGTCATCAGTGTTAATGGTGATGAGCATATTATCATATTTGCA
AAGAGAGATGTCGCAAAATGGGAGGAGCTGACCTATGATTATAGGTTTATCTTCGTGCCCTTTA
GTTCTCGGGTGACTTTGAAATTCCATTATTACCTGATTCTTTATCTATAAATTTGCAGGTTCTT
TTCAATTGATGAGCGCCTTGCATGTTACTGTGGTTTCCCAAGATGCCGGGGTGTTGTTAATGAC
ACAGAAGCCGAAGAACGACAGGCAAATATTCATGCTTCTCGCTGTGAGTTAAAAGAGTGGACAG
AGTCCTGAGAG
						
					

			
		

Sequences
Splice junction sequence	AAGATGCCGGGGTGTTGTTAATGACACAGAAGCCGAAGAACGACAGGCAAATATTCATGCTTCT CGCTGTGAGTTAAAAGAGTGGACAGAGTCCTGAGAGagccatataattatcttggaagaagagg acgaaaggaacctgaagctcttgctggtgcttcttcaaagcgattatttgttgagaatcaaccg tatattgt
Assembled circRNA sequence	Yes The sequence of a circRNA based on assembly using circseq-cup (Ye et al., 2016) or CIRI-full (Zheng and Zhao, 2018) or CIRCexplorer2 (Zhang et al., 2016).
Full-length trsnacripts	Transcript length: 731 Transcript exons: 1759618-1759863,1760191-1760252,1760335-1760412,1760717- 1760812,1760902-1761005,1761084-1761228 AGCCATATAATTATCTTGGAAGAAGAGGACGAAAGGAACCTGAAGCTCTTGCTGGTGCTTCTTC AAAGCGATTATTTGTTGAGAATCAACCGTATATTGTTGGCGGATACTCTCGACATGAATTTTCA ACCTACGAACGCATTTATGGATCAAAGATGTCCCAAATAACTACTCCGAGCAATATTCTATCTA TGGCCGAGAAATATACATTCATGAAGGAAACCTACAGGAAGAGATTAGCATTCGGGAAATCGGG AATTCATGGTTTTGGGATCTTTGCAAAGCTTCCGCACAGAGCCGGAGATATGGTGATTGAGTAC ACTGGTGAACTTGTTAGGCCACCAATAGCTGACAAGAGAGAGCATCTTATATACAACTCAATGG TGGGTGCCGGGACCTATATGTTTAGAATTGATAATGAGCGGGTCATAGACGCAACAAGGACAGG AAGCATTGCTCACCTTATCAATCATTCATGTGAGCCAAATTGCTATTCAAGAGTCATCAGTGTT AATGGTGATGAGCATATTATCATATTTGCAAAGAGAGATGTCGCAAAATGGGAGGAGCTGACCT ATGATTATAGGTTCTTTTCAATTGATGAGCGCCTTGCATGTTACTGTGGTTTCCCAAGATGCCG GGGTGTTGTTAATGACACAGAAGCCGAAGAACGACAGGCAAATATTCATGCTTCTCGCTGTGAG TTAAAAGAGTGGACAGAGTCCTGAGAG
Genomic sequence	AGCCATATAATTATCTTGGAAGAAGAGGACGAAAGGAACCTGAAGCTCTTGCTGGTGCTTCTTC AAAGCGATTATTTGTTGAGAATCAACCGTATATTGTTGGCGGATACTCTCGACATGAATTTTCA ACCTACGAACGCATTTATGGATCAAAGATGTCCCAAATAACTACTCCGAGCAATATTCTATCTA TGGCCGAGAAATATACATTCATGAAGGAAACCTACAGGAAGAGATTAGCATTCGGTAAGCGTTT ATTCAGAAATCGTAAAATATGCTACAACTTGTCAAAGTTGCTGCTATGATGCCTCGGTTTTTCA TGCCTTTGGGGGGTTTTTGAGGATCAAAAATTTCTGTAAGAAGATAAAATTGGTGGGACTTTTT TTTCTACTTGAATTCTTGGGATGTATGGTGCATTACTGTGATGGGTCTCTGGATATAGTGATCA TTTTTACTTATTTAGGATTAGACGGGAAACGTTTCCCATAAAACCTAACATCTCTATCATAACT AATAACTAATTTTATCTGAACCTTTTTTGTTTTCCTTTAAATGATTTACTTTCTTCTACAGGGA AATCGGGAATTCATGGTTTTGGGATCTTTGCAAAGCTTCCGCACAGAGCCGGAGATATGGTAAG GCATTCTTATATTTTACTGTCCATTCTTGCTTAGTATAACGTCATGACTGACAATGTTGTGAAT TGGGTGGGTGCAGGTGATTGAGTACACTGGTGAACTTGTTAGGCCACCAATAGCTGACAAGAGA GAGCATCTTATATACAACTCAATGGTGGTACGTATCTGACTTTGTACATTTTATACTTCTTAGA AAATTCTGAACAATATTGGACCTAATTATCAGCACATTGATCTGTGGCTTTTCTCATCTAGACC GATATATCACTTTACTTTGATGTATTTTATTGAATGATTTCTCTGGCTCGAGCCCTGAACATTC TCTTAGCATTCCCTTTACCACTCTGTGTTGTTAGTATACACATCTTCCTAACTTTCACTCTCTT ATTTTTAGAATCTGATATTTTTGGTTATGAGTACTGAGTAGTTAGTTATCAATTTACCACTCCT TTATGATATAGGGTGCCGGGACCTATATGTTTAGAATTGATAATGAGCGGGTCATAGACGCAAC AAGGACAGGAAGCATTGCTCACCTTATCAATCATTCATGTGAGGTATGGTCAAGCAGTTTTGAC GATTTGTTATTTAATTTACTTAGTATCTGCAATATCATCACATTACTTATGGATATGCTTCTGT ACAGCCAAATTGCTATTCAAGAGTCATCAGTGTTAATGGTGATGAGCATATTATCATATTTGCA AAGAGAGATGTCGCAAAATGGGAGGAGCTGACCTATGATTATAGGTTTATCTTCGTGCCCTTTA GTTCTCGGGTGACTTTGAAATTCCATTATTACCTGATTCTTTATCTATAAATTTGCAGGTTCTT TTCAATTGATGAGCGCCTTGCATGTTACTGTGGTTTCCCAAGATGCCGGGGTGTTGTTAATGAC ACAGAAGCCGAAGAACGACAGGCAAATATTCATGCTTCTCGCTGTGAGTTAAAAGAGTGGACAG AGTCCTGAGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.307249266

Conservation Information
Conserved circRNAs	NA
PMCS	0.307249266

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017;Chen et al., 2017a

circRNA

Detail information of AT1G05830_circ_g.12

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